Rchemcpp 2.9.0
Guenter Klambauer
| Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Rchemcpp | | Last Changed Rev: 109592 / Revision: 109948 | | Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015) |
| linux2.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | [ OK ] | |  |
| windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK | |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings Rchemcpp_2.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/Rchemcpp.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rchemcpp/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rchemcpp’ version ‘2.9.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘Rchemcpp’ can be installed ... [60s/60s] OK
* checking installed package size ... NOTE
installed size is 13.5Mb
sub-directories of 1Mb or more:
extdata 2.3Mb
libs 10.2Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [6s/6s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.3-bioc/meat/Rchemcpp.Rcheck/00check.log’
for details.
* installing *source* package ‘Rchemcpp’ ...
** libs
make[1]: Entering directory `/home/biocbuild/bbs-3.3-bioc/meat/Rchemcpp.Rcheck/00_pkg_src/Rchemcpp/src/chemcpp/src'
g++ -g -O2 -w -fPIC -I../src/ -c -o constant.o constant.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o node.o node.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o atom.o atom.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o bond.o bond.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o cerror.o cerror.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o chemcpp.o chemcpp.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o datacontainer.o datacontainer.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o descriptor.o descriptor.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o elements.o elements.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o jlpioutils.o jlpioutils.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o kcfmolecule.o kcfmolecule.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o molecule.o molecule.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o moleculeset.o moleculeset.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o moleculeutils.o moleculeutils.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o ring.o ring.cpp
g++ -g -O2 -w -fPIC -I../src/ -c -o stringutils.o stringutils.cpp
g++ -shared -o ../../libchemcpp.dll -g -O2 -w -fPIC -I../src/ constant.o node.o atom.o bond.o cerror.o chemcpp.o datacontainer.o descriptor.o elements.o jlpioutils.o kcfmolecule.o molecule.o moleculeset.o moleculeutils.o ring.o stringutils.o
g++ -shared -o ../../libchemcpp.so -g -O2 -w -fPIC -I../src/ constant.o node.o atom.o bond.o cerror.o chemcpp.o datacontainer.o descriptor.o elements.o jlpioutils.o kcfmolecule.o molecule.o moleculeset.o moleculeutils.o ring.o stringutils.o
make[1]: Leaving directory `/home/biocbuild/bbs-3.3-bioc/meat/Rchemcpp.Rcheck/00_pkg_src/Rchemcpp/src/chemcpp/src'
g++ -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -I./chemcpp/src -I/usr/local/include -I"/home/biocbuild/bbs-3.3-bioc/R/library/Rcpp/include" -fpic -g -O2 -c Relements.cpp -o Relements.o
g++ -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -I./chemcpp/src -I/usr/local/include -I"/home/biocbuild/bbs-3.3-bioc/R/library/Rcpp/include" -fpic -g -O2 -c Rmolecule.cpp -o Rmolecule.o
g++ -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -I./chemcpp/src -I/usr/local/include -I"/home/biocbuild/bbs-3.3-bioc/R/library/Rcpp/include" -fpic -g -O2 -c Rmoleculeset.cpp -o Rmoleculeset.o
g++ -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -I./chemcpp/src -I/usr/local/include -I"/home/biocbuild/bbs-3.3-bioc/R/library/Rcpp/include" -fpic -g -O2 -c spectrum3Dhelper.cpp -o spectrum3Dhelper.o
g++ -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -I./chemcpp/src -I/usr/local/include -I"/home/biocbuild/bbs-3.3-bioc/R/library/Rcpp/include" -fpic -g -O2 -c spectrumhelper.cpp -o spectrumhelper.o
g++ -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -I./chemcpp/src -I/usr/local/include -I"/home/biocbuild/bbs-3.3-bioc/R/library/Rcpp/include" -fpic -g -O2 -c subtreehelper.cpp -o subtreehelper.o
g++ -shared -L/home/biocbuild/bbs-3.3-bioc/R/lib -L/usr/local/lib -o Rchemcpp.so Relements.o Rmolecule.o Rmoleculeset.o spectrum3Dhelper.o spectrumhelper.o subtreehelper.o -L./ -lchemcpp -Wl,-rpath,/home/biocbuild/bbs-3.3-bioc/meat/Rchemcpp.Rcheck/Rchemcpp/libs -L/home/biocbuild/bbs-3.3-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.3-bioc/meat/Rchemcpp.Rcheck/Rchemcpp/libs
** R
** inst
** preparing package for lazy loading
in method for ‘length’ with signature ‘"Rcpp_Rmoleculeset"’: no definition for class “Rcpp_Rmoleculeset”
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Rchemcpp)